Variant report

Variant	rs7739752
Chromosome Location	chr6:35339035-35339036
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35335918..35340012-chr6:35342665..35344421,4	K562	blood:
2	chr6:35337473..35339598-chr6:35358141..35360010,2	K562	blood:
3	chr6:35330201..35332788-chr6:35338848..35341376,3	K562	blood:
4	chr6:35337130..35339523-chr6:35342584..35344904,3	MCF-7	breast:
5	chr6:35335918..35339865-chr6:35340596..35344421,5	K562	blood:
6	chr6:35335380..35337947-chr6:35338128..35341057,2	MCF-7	breast:
7	chr6:35329439..35333357-chr6:35335770..35342563,9	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1053046	0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs10755687	0.82[MKK][hapmap]
rs11571504	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13362808	0.82[ASN][1000 genomes]
rs3213573	1.00[JPT][hapmap]
rs3777744	0.82[ASW][hapmap]
rs57648364	0.82[ASN][1000 genomes]
rs59137976	0.82[ASN][1000 genomes]
rs6457813	1.00[JPT][hapmap]
rs6457815	1.00[MEX][hapmap]
rs6457816	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6900530	1.00[JPT][hapmap]
rs6901410	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6902123	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906237	1.00[JPT][hapmap];1.00[MEX][hapmap]
rs6919334	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6922548	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6937088	0.91[ASN][1000 genomes]
rs6942357	0.96[ASN][1000 genomes]
rs707969	1.00[JPT][hapmap]
rs73413718	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7746988	1.00[JPT][hapmap];1.00[MEX][hapmap]
rs7754871	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296148	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296154	1.00[JPT][hapmap]
rs9470001	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470007	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470016	0.82[ASN][1000 genomes]
rs9658067	0.82[ASN][1000 genomes]
rs9658083	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9658100	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9658119	0.85[GIH][hapmap]
rs9658125	1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
2	nsv462907	chr6:35333799-35408959	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv602908	chr6:35333799-35408959	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35321000-35342400	Weak transcription	Fetal Kidney	kidney
2	chr6:35328400-35344800	Weak transcription	Fetal Lung	lung
3	chr6:35329000-35350800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr6:35331200-35350800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr6:35331400-35339200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr6:35331600-35345400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:35331600-35345400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:35334200-35339800	Enhancers	K562	blood
9	chr6:35334800-35339400	Enhancers	Psoas Muscle	Psoas
10	chr6:35335000-35339800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:35335400-35339400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:35335400-35339800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr6:35335400-35339800	Enhancers	Adipose Nuclei	Adipose
14	chr6:35335400-35340000	Enhancers	Primary T cells fromperipheralblood	blood
15	chr6:35335600-35339200	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr6:35335600-35339400	Enhancers	Small Intestine	intestine
17	chr6:35335600-35339400	Enhancers	Dnd41	blood
18	chr6:35335600-35339800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr6:35335800-35339600	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr6:35335800-35340000	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr6:35335800-35340400	Enhancers	Spleen	Spleen
22	chr6:35336000-35339200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:35336000-35339400	Enhancers	NHLF	lung
24	chr6:35336000-35339600	Enhancers	Fetal Thymus	thymus
25	chr6:35336000-35339600	Enhancers	HMEC	breast
26	chr6:35336000-35339800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr6:35336000-35339800	Enhancers	HUVEC	blood vessel
28	chr6:35336200-35339400	Flanking Active TSS	GM12878-XiMat	blood
29	chr6:35336200-35339600	Enhancers	Placenta	Placenta
30	chr6:35336200-35340000	Enhancers	Primary B cells from peripheral blood	blood
31	chr6:35336400-35339400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr6:35336600-35339600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
33	chr6:35336600-35339600	Enhancers	Rectal Mucosa Donor 31	rectum
34	chr6:35337200-35339800	Enhancers	Lung	lung
35	chr6:35337200-35339800	Enhancers	Right Ventricle	heart
36	chr6:35337200-35339800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
37	chr6:35337200-35341400	Enhancers	Brain Hippocampus Middle	brain
38	chr6:35337400-35339400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr6:35337400-35339600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr6:35337400-35339800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:35337800-35339200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr6:35337800-35339200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr6:35337800-35339200	Enhancers	Esophagus	oesophagus
44	chr6:35337800-35339200	Enhancers	Left Ventricle	heart
45	chr6:35337800-35339400	Enhancers	Fetal Muscle Leg	muscle
46	chr6:35337800-35339400	Enhancers	Right Atrium	heart
47	chr6:35337800-35339600	Enhancers	Primary hematopoietic stem cells	blood
48	chr6:35337800-35339800	Enhancers	Brain Anterior Caudate	brain
49	chr6:35337800-35340000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
50	chr6:35337800-35340000	Enhancers	Fetal Intestine Large	intestine

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